| Port details |
- grappa Genome Rearrangements Analysis and Phylogeny Software
- 2.0_1 biology
 =0      2.0_1Version of this port present on the latest quarterly branch.  DEPRECATED: Unmaintained and dead upstream, does not build with -fno-common (llvm 11)
 This port expired on: 2021-04-01
- There is no maintainer for this port.
- Any concerns regarding this port should be directed to the FreeBSD Ports mailing list via ports@FreeBSD.org
- Port Added: 2001-07-04 05:39:40
- Last Update: 2021-04-07 17:54:26
- Commit Hash: 5980fd4
- License: GPLv2
- WWW:
- http://www.cs.unm.edu/~moret/GRAPPA/
- Description:
- GRAPPA: Genome Rearrangements Analysis under Parsimony and other
Phylogenetic Algorithms
This suite of programs implements the approach to phylogeny
reconstruction from gene orders described in the paper
Moret, B.M.E., Wyman, S., Bader, D.A., Warnow, T., and Yan, M.,
``A detailed study of breakpoint analysis,''
Proc. 6th Pacific Symp. Biocomputing PSB 2001, Hawaii (2001).
In its current state, "grappa" allows one to explore either the
space of all possible trees on n labelled leaves or the space of all
such trees that obey (are refinements of) a particular constraint tree.
"invdist" takes the first two genomes in the input file and returns
their inversion distance.
"distmat" prints the inversion and breakpoint distance matrices.
WWW: http://www.cs.unm.edu/~moret/GRAPPA/
  ¦  ¦  ¦  ¦ 
- Manual pages:
- FreshPorts has no man page information for this port.
- pkg-plist: as obtained via:
make generate-plist - Dependency lines:
-
- No installation instructions:
- This port has been deleted.
- PKGNAME: grappa
- Flavors: there is no flavor information for this port.
- distinfo:
- SHA256 (GRAPPA20.tar.gz) = 19b3c5ab21c845eaf4fcf56fcf09a15db84597d8438155bb463d8f3e1bb51103
SIZE (GRAPPA20.tar.gz) = 172261
Packages (timestamps in pop-ups are UTC):
- Dependencies
- NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
- Build dependencies:
-
- gmake>=4.3 : devel/gmake
- There are no ports dependent upon this port
Configuration Options:- No options to configure
- Options name:
- biology_grappa
- USES:
- gmake
- FreshPorts was unable to extract/find any pkg message
- Master Sites:
|
| Commit History - (may be incomplete: for full details, see links to repositories near top of page) |
| Commit | Credits | Log message |
|---|
2.0_1
07 Apr 2021 17:54:26
 |
Rene Ladan (rene) |
Remove expired ports:
2021-04-01 ftp/wzdftpd: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 astro/roadmap: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 games/cosmo: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 games/bomberinstinct: Unmaintained and dead upstream, does not build
with -fno-common (llvm 11)
2021-04-01 games/drm: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 games/bygfoot: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 games/cre: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 irc/hybserv: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 irc/xaric: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 mail/elmo: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 misc/cave: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 security/bugs: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11)
2021-04-01 security/dmitry: Unmaintained and dead upstream, does not build with
-fno-common (llvm 11) (Only the first 15 lines of the commit message are shown above  ) |
2.0_1
06 Apr 2021 14:31:07
|
Mathieu Arnold (mat) |
Remove # $FreeBSD$ from Makefiles. |
2.0_1
30 Aug 2020 09:47:50
  |
zeising |
Extend expiration of ports broken with -fno-common
Extend the expiration of unmaintained leaf ports that are broken with
-fno-common and previously had a short expiration date. The new date is set
to 2021-04-01, meaning the ports will be in the 2021Q2 branch, giving people
until 2021-06-30 (10 months from now) to fix issues.
Improve the wording of the deprecation message, mentioning both llvm 11 and
-fno-common.
Bump portrevision to force reinstall. This way the warning message about
deprecation will be displayed to users installing or reinstalling the
software.
MFH: 2020Q3 (maybe) |
2.0
29 Aug 2020 08:34:52
|
tcberner |
biology/: Fix build with clang11 and deprecate ports@ ports |
2.0
19 May 2016 10:21:25
|
amdmi3 |
- Fix trailing whitespace in pkg-descrs, categories [a-f]*
Approved by: portmgr blanket |
2.0
25 Sep 2015 18:55:08
|
rm |
biology/grappa: define license (GPLv2)
As per the web site, the license for GRAPPA is GPLv2
https://www.cs.unm.edu/~moret/GRAPPA/
PR: 202426
Submitted by: George <george@nycbug.org> |
2.0
20 Dec 2013 13:27:13
|
pawel |
- Respect CC/CFLAGS
PR: ports/184857
Submitted by: KATO Tsuguru <tkato432@yahoo.com> |
2.0
10 Dec 2013 17:25:39
|
bapt |
Support stage
USE_GMAKE -> USES=gmake
Respect CC |
2.0
20 Sep 2013 15:55:44
|
bapt |
Add NO_STAGE all over the place in preparation for the staging support (cat:
biology) |
2.0
11 Apr 2011 19:54:35
|
ade |
Update to GNU make 3.82 after numerous -exp runs. |
2.0
19 Mar 2011 12:38:54
|
miwi |
- Get Rid MD5 support |
2.0
13 Dec 2006 13:20:20
|
linimon |
Reset dbader@ece.unm.edu due to timeouts and no response to email.
Hat: portmgr |
2.0
03 May 2006 23:26:35
|
edwin |
Remove USE_REINPLACE from all categories starting with B |
2.0
22 Jan 2006 08:20:34
|
edwin |
SHA256ify
Approved by: krion@ |
2.0
15 Apr 2005 18:48:57
|
leeym |
- update grappa to 2.0
- utilize PLIST_FILES
- unbreak it on 4.x
- update maintainer's email
PR: 79241
Submitted by: David A. Bader <dbader@ece.unm.edu> |
1.0.3_1
17 Aug 2004 10:29:40
|
kris |
This is now buildable on 5.x, remove BROKEN. |
1.0.3_1
31 Mar 2004 03:12:58
|
trevor |
SIZEify (maintainer timeout) |
1.0.3_1
04 Feb 2004 05:21:48
|
marcus |
Bump PORTREVISION on all ports that depend on gettext to aid with upgrading.
(Part 2) |
1.0.3
19 Dec 2003 10:22:05
|
linimon |
Mark as broken on 5.x due to the usual gcc terminating-character hassles.
Notified mainatainer. |
1.0.3
21 Feb 2003 11:01:38
|
knu |
De-pkg-comment. |
29 Aug 2001 12:53:29
|
wjv |
- Update to version 1.0.3 |
04 Jul 2001 09:39:40
|
wjv |
Add grappa 1.0.2, Genome Rearrangements Analysis and Phylogeny Software. |
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